Multiple sequence alignment - TraesCS1A01G290900

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1A01G290900 chr1A 100.000 3096 0 0 1 3096 487310259 487307164 0 5718
1 TraesCS1A01G290900 chr1D 92.866 3140 119 35 1 3096 387550718 387547640 0 4460
2 TraesCS1A01G290900 chr1B 91.656 3140 140 39 1 3096 520896687 520893626 0 4235


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1A01G290900 chr1A 487307164 487310259 3095 True 5718 5718 100.000 1 3096 1 chr1A.!!$R1 3095
1 TraesCS1A01G290900 chr1D 387547640 387550718 3078 True 4460 4460 92.866 1 3096 1 chr1D.!!$R1 3095
2 TraesCS1A01G290900 chr1B 520893626 520896687 3061 True 4235 4235 91.656 1 3096 1 chr1B.!!$R1 3095

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
482 498 0.104671 GGCCCACATGCGCAAATATT 59.895 50.0 17.11 0.0 0.0 1.28 F
1200 1225 0.719015 ACATCTCTCCCCTTCCTCCA 59.281 55.0 0.00 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1504 1529 0.039256 CGGCAATGGTGGTGAAACAG 60.039 55.0 0.0 0.0 39.98 3.16 R
2721 2778 0.032403 GCACAGAGTTTTGCATGGCA 59.968 50.0 0.0 0.0 38.68 4.92 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 9.113838 CCAGCTACAGATTGTTTTATCTTGTAT 57.886 33.333 0.00 0.00 32.60 2.29
140 141 4.625742 CGTAAGTGGATCTCGTTGACAATT 59.374 41.667 0.00 0.00 0.00 2.32
188 189 4.919793 TCTACTCCACTGCTAGTTACTGT 58.080 43.478 0.00 0.00 0.00 3.55
341 351 7.019774 GGTTTCTTAAGAAAACGTTAGGTGT 57.980 36.000 27.81 0.00 44.58 4.16
350 360 5.234972 AGAAAACGTTAGGTGTTCCTTAACG 59.765 40.000 0.00 13.04 42.86 3.18
482 498 0.104671 GGCCCACATGCGCAAATATT 59.895 50.000 17.11 0.00 0.00 1.28
502 518 3.383620 TGCCAGTAAGGTGCAATTTTG 57.616 42.857 0.00 0.00 40.61 2.44
503 519 2.036992 TGCCAGTAAGGTGCAATTTTGG 59.963 45.455 0.00 0.09 40.61 3.28
504 520 2.298729 GCCAGTAAGGTGCAATTTTGGA 59.701 45.455 14.98 0.00 40.61 3.53
505 521 3.614870 GCCAGTAAGGTGCAATTTTGGAG 60.615 47.826 14.98 0.00 40.61 3.86
506 522 3.056607 CCAGTAAGGTGCAATTTTGGAGG 60.057 47.826 0.00 0.00 0.00 4.30
507 523 3.056607 CAGTAAGGTGCAATTTTGGAGGG 60.057 47.826 0.00 0.00 0.00 4.30
508 524 2.101640 AAGGTGCAATTTTGGAGGGT 57.898 45.000 0.00 0.00 0.00 4.34
554 570 1.411930 CCAATGGCATCAATCTCCCCA 60.412 52.381 0.00 0.00 0.00 4.96
627 643 1.340248 GACACCTGTTCGTCTTCTGGA 59.660 52.381 0.00 0.00 0.00 3.86
708 724 6.911250 TTTTCCTTCCAAGGTAAAGAATCC 57.089 37.500 5.24 0.00 46.54 3.01
717 733 5.127682 CCAAGGTAAAGAATCCCATTTCCAG 59.872 44.000 0.00 0.00 0.00 3.86
751 767 0.833409 AGAAAGGGCCCCAGCTTTTG 60.833 55.000 21.43 0.00 39.73 2.44
752 768 1.074547 AAAGGGCCCCAGCTTTTGT 60.075 52.632 21.43 0.00 39.73 2.83
793 809 4.458397 CACCCAGCTCATCAGTTTGATAT 58.542 43.478 0.00 0.00 34.28 1.63
801 817 5.238214 GCTCATCAGTTTGATATCCTTCCAC 59.762 44.000 0.00 0.00 34.28 4.02
802 818 6.312141 TCATCAGTTTGATATCCTTCCACA 57.688 37.500 0.00 0.00 34.28 4.17
810 826 4.780815 TGATATCCTTCCACAACATGTCC 58.219 43.478 0.00 0.00 0.00 4.02
850 875 6.208007 TGAGCTGGCATATCAATTAGGAAATG 59.792 38.462 0.00 0.00 0.00 2.32
923 948 3.076621 AGTGTACACCATGCACATCAAG 58.923 45.455 22.28 0.00 45.74 3.02
941 966 5.007385 TCAAGCGTTCTCTTCTTATACCC 57.993 43.478 0.00 0.00 0.00 3.69
943 968 5.046878 TCAAGCGTTCTCTTCTTATACCCAA 60.047 40.000 0.00 0.00 0.00 4.12
944 969 4.756502 AGCGTTCTCTTCTTATACCCAAC 58.243 43.478 0.00 0.00 0.00 3.77
1181 1206 1.596934 CTTCAGCACCGCCTTCCTA 59.403 57.895 0.00 0.00 0.00 2.94
1200 1225 0.719015 ACATCTCTCCCCTTCCTCCA 59.281 55.000 0.00 0.00 0.00 3.86
1293 1318 2.034687 GCTGCCTTCTCTTGCCCA 59.965 61.111 0.00 0.00 0.00 5.36
1480 1505 3.138304 CACTAAACAGCTGCTAACCACA 58.862 45.455 15.27 0.00 0.00 4.17
1504 1529 1.202510 TGATGCAAAACAGGGCAACAC 60.203 47.619 0.00 0.00 44.20 3.32
1511 1536 3.586843 ACAGGGCAACACTGTTTCA 57.413 47.368 0.00 0.00 42.94 2.69
1544 1569 3.202001 CCGCCAATACCGCCACAG 61.202 66.667 0.00 0.00 0.00 3.66
1708 1733 2.916269 TGTGTATTGATCCCCCTCACAA 59.084 45.455 0.00 0.00 32.66 3.33
1731 1756 4.070716 CCTGTGAATGCTTCTGTTCTCTT 58.929 43.478 0.00 0.00 0.00 2.85
1741 1766 4.697352 GCTTCTGTTCTCTTGCCAATTCTA 59.303 41.667 0.00 0.00 0.00 2.10
1745 1770 6.240894 TCTGTTCTCTTGCCAATTCTAACAT 58.759 36.000 0.00 0.00 0.00 2.71
1748 1773 9.330063 CTGTTCTCTTGCCAATTCTAACATATA 57.670 33.333 0.00 0.00 0.00 0.86
1754 1779 9.851686 TCTTGCCAATTCTAACATATATCTTGT 57.148 29.630 0.00 0.00 0.00 3.16
1843 1868 2.358737 CGCTTCGCCAGGAACCTT 60.359 61.111 0.00 0.00 0.00 3.50
1866 1891 2.502492 CGGAGGGCGACATGGAGAT 61.502 63.158 0.00 0.00 0.00 2.75
1888 1913 1.339610 GAGGCGTCTGACATCAGCTAT 59.660 52.381 8.73 0.00 43.46 2.97
1943 1968 2.290122 CTACGACAGCCAGAGCCAGG 62.290 65.000 0.00 0.00 41.25 4.45
2045 2073 1.785041 GCAGCAGCTTGGTTTCGACA 61.785 55.000 0.00 0.00 37.91 4.35
2109 2137 3.610669 CTAGCTCCGGCGCCTGAT 61.611 66.667 26.68 15.51 44.37 2.90
2110 2138 3.154473 TAGCTCCGGCGCCTGATT 61.154 61.111 26.68 16.47 44.37 2.57
2111 2139 3.445518 TAGCTCCGGCGCCTGATTG 62.446 63.158 26.68 13.71 44.37 2.67
2204 2241 1.369839 GCTGACCTTCTTAAGCCCGC 61.370 60.000 0.00 0.00 0.00 6.13
2205 2242 0.744771 CTGACCTTCTTAAGCCCGCC 60.745 60.000 0.00 0.00 0.00 6.13
2206 2243 1.451567 GACCTTCTTAAGCCCGCCC 60.452 63.158 0.00 0.00 0.00 6.13
2207 2244 2.513897 CCTTCTTAAGCCCGCCCG 60.514 66.667 0.00 0.00 0.00 6.13
2208 2245 3.202706 CTTCTTAAGCCCGCCCGC 61.203 66.667 0.00 0.00 0.00 6.13
2209 2246 4.789123 TTCTTAAGCCCGCCCGCC 62.789 66.667 0.00 0.00 0.00 6.13
2256 2293 5.630680 GCGTGCATGCAGCTTAATTATTTAT 59.369 36.000 25.86 0.00 45.94 1.40
2347 2388 0.820482 TGTGTTCCGTCCGAGTCAGA 60.820 55.000 0.00 0.00 0.00 3.27
2361 2406 3.437395 CGAGTCAGACAGTTAGCACTACT 59.563 47.826 2.66 0.00 0.00 2.57
2362 2407 4.083217 CGAGTCAGACAGTTAGCACTACTT 60.083 45.833 2.66 0.00 0.00 2.24
2363 2408 5.563085 CGAGTCAGACAGTTAGCACTACTTT 60.563 44.000 2.66 0.00 0.00 2.66
2364 2409 5.774630 AGTCAGACAGTTAGCACTACTTTC 58.225 41.667 2.66 0.00 0.00 2.62
2365 2410 5.536916 AGTCAGACAGTTAGCACTACTTTCT 59.463 40.000 2.66 0.00 34.00 2.52
2366 2411 6.715718 AGTCAGACAGTTAGCACTACTTTCTA 59.284 38.462 2.66 0.00 32.44 2.10
2367 2412 7.394923 AGTCAGACAGTTAGCACTACTTTCTAT 59.605 37.037 2.66 0.00 32.44 1.98
2368 2413 8.675504 GTCAGACAGTTAGCACTACTTTCTATA 58.324 37.037 0.00 0.00 32.44 1.31
2369 2414 8.894731 TCAGACAGTTAGCACTACTTTCTATAG 58.105 37.037 0.00 0.00 32.44 1.31
2438 2483 2.680339 GTTGCTTTCTGCTCCTCCATAC 59.320 50.000 0.00 0.00 43.37 2.39
2539 2584 1.509644 AATGTCAGTGCTGGTGCGTG 61.510 55.000 0.00 0.00 43.34 5.34
2590 2635 2.665603 GGAGGCCACTGACTCACC 59.334 66.667 5.01 0.00 35.45 4.02
2594 2640 2.574955 GGCCACTGACTCACCGAGT 61.575 63.158 0.00 0.00 46.42 4.18
2676 2729 3.554692 GCGACGGTCTCATTGGCG 61.555 66.667 6.57 0.00 0.00 5.69
2680 2733 1.573829 GACGGTCTCATTGGCGCAAA 61.574 55.000 10.83 3.91 0.00 3.68
2692 2749 0.879839 GGCGCAAACAAATTGGTGCT 60.880 50.000 10.83 0.00 39.54 4.40
2704 2761 4.510038 AATTGGTGCTGATCACTTTCAC 57.490 40.909 0.00 0.00 44.98 3.18
2705 2762 1.896220 TGGTGCTGATCACTTTCACC 58.104 50.000 17.93 17.93 44.98 4.02
2706 2763 1.896220 GGTGCTGATCACTTTCACCA 58.104 50.000 19.05 0.00 44.79 4.17
2707 2764 2.440409 GGTGCTGATCACTTTCACCAT 58.560 47.619 19.05 0.00 44.79 3.55
2708 2765 2.421424 GGTGCTGATCACTTTCACCATC 59.579 50.000 19.05 1.73 44.79 3.51
2709 2766 2.094894 GTGCTGATCACTTTCACCATCG 59.905 50.000 0.00 0.00 42.38 3.84
2710 2767 1.063174 GCTGATCACTTTCACCATCGC 59.937 52.381 0.00 0.00 0.00 4.58
2711 2768 2.625737 CTGATCACTTTCACCATCGCT 58.374 47.619 0.00 0.00 0.00 4.93
2712 2769 3.785486 CTGATCACTTTCACCATCGCTA 58.215 45.455 0.00 0.00 0.00 4.26
2713 2770 3.521560 TGATCACTTTCACCATCGCTAC 58.478 45.455 0.00 0.00 0.00 3.58
2714 2771 2.380084 TCACTTTCACCATCGCTACC 57.620 50.000 0.00 0.00 0.00 3.18
2715 2772 1.066430 TCACTTTCACCATCGCTACCC 60.066 52.381 0.00 0.00 0.00 3.69
2716 2773 0.252197 ACTTTCACCATCGCTACCCC 59.748 55.000 0.00 0.00 0.00 4.95
2717 2774 0.463833 CTTTCACCATCGCTACCCCC 60.464 60.000 0.00 0.00 0.00 5.40
2718 2775 0.912487 TTTCACCATCGCTACCCCCT 60.912 55.000 0.00 0.00 0.00 4.79
2719 2776 0.912487 TTCACCATCGCTACCCCCTT 60.912 55.000 0.00 0.00 0.00 3.95
2720 2777 0.912487 TCACCATCGCTACCCCCTTT 60.912 55.000 0.00 0.00 0.00 3.11
2721 2778 0.034477 CACCATCGCTACCCCCTTTT 60.034 55.000 0.00 0.00 0.00 2.27
2722 2779 0.034477 ACCATCGCTACCCCCTTTTG 60.034 55.000 0.00 0.00 0.00 2.44
2723 2780 1.384222 CCATCGCTACCCCCTTTTGC 61.384 60.000 0.00 0.00 0.00 3.68
2724 2781 1.076995 ATCGCTACCCCCTTTTGCC 60.077 57.895 0.00 0.00 0.00 4.52
2725 2782 1.858739 ATCGCTACCCCCTTTTGCCA 61.859 55.000 0.00 0.00 0.00 4.92
2726 2783 1.379843 CGCTACCCCCTTTTGCCAT 60.380 57.895 0.00 0.00 0.00 4.40
2727 2784 1.666209 CGCTACCCCCTTTTGCCATG 61.666 60.000 0.00 0.00 0.00 3.66
2728 2785 1.960040 GCTACCCCCTTTTGCCATGC 61.960 60.000 0.00 0.00 0.00 4.06
2729 2786 0.614415 CTACCCCCTTTTGCCATGCA 60.614 55.000 0.00 0.00 36.47 3.96
2740 2797 0.032403 TGCCATGCAAAACTCTGTGC 59.968 50.000 0.00 0.00 41.29 4.57
2745 2802 1.105457 TGCAAAACTCTGTGCAGCTT 58.895 45.000 0.00 0.00 45.52 3.74
2775 2834 1.268743 GCGGGCTTTGCACTATGATTC 60.269 52.381 0.00 0.00 0.00 2.52
2786 2845 3.055385 GCACTATGATTCCCCCGCTATAA 60.055 47.826 0.00 0.00 0.00 0.98
2830 2889 4.097589 CCTGGAAAGAAAAGATGCATCTCC 59.902 45.833 28.83 22.44 35.76 3.71
2839 2898 4.414337 AAGATGCATCTCCTAACTGTCC 57.586 45.455 28.83 0.00 35.76 4.02
2849 2908 6.697641 TCTCCTAACTGTCCTTTTATTGGT 57.302 37.500 0.00 0.00 0.00 3.67
2856 2915 6.590234 ACTGTCCTTTTATTGGTCATTTCC 57.410 37.500 0.00 0.00 0.00 3.13
2928 2987 2.827642 GGTGCAGAGATGCAGGCC 60.828 66.667 2.62 0.00 46.32 5.19
2947 3007 0.726827 CATTTCGGTCATGGGTGTCG 59.273 55.000 0.00 0.00 0.00 4.35
2977 3037 5.415701 TCAGAATGTTGGTGGAATAGCTTTC 59.584 40.000 0.00 0.00 37.40 2.62
2986 3049 2.027385 GGAATAGCTTTCCTGCCTTGG 58.973 52.381 16.08 0.00 35.73 3.61
3009 3078 4.743644 GGAACTATTTAGGTCACGGAATCG 59.256 45.833 5.09 0.00 41.80 3.34
3064 3133 5.044846 AGGAGCCTGCTTCTAATAAAAAGGA 60.045 40.000 0.00 0.00 28.22 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 7.453393 CATTATGGAGCAGGAATAGAAAGGTA 58.547 38.462 0.00 0.00 0.00 3.08
332 342 2.733026 CCACGTTAAGGAACACCTAACG 59.267 50.000 18.90 18.90 41.12 3.18
341 351 3.562141 CACATCACAACCACGTTAAGGAA 59.438 43.478 1.43 0.00 0.00 3.36
350 360 7.826690 AGAAAATATAACCACATCACAACCAC 58.173 34.615 0.00 0.00 0.00 4.16
482 498 2.036992 CCAAAATTGCACCTTACTGGCA 59.963 45.455 0.00 0.00 40.22 4.92
513 529 3.814283 GGCCATTCTGCACAAAAATGAAA 59.186 39.130 0.00 0.00 33.22 2.69
521 537 0.609151 CCATTGGCCATTCTGCACAA 59.391 50.000 6.09 0.00 0.00 3.33
662 678 2.979240 AGTTCGAAATCTGCCTTCCTC 58.021 47.619 0.00 0.00 0.00 3.71
727 743 3.628646 CTGGGGCCCTTTCTGTCCG 62.629 68.421 25.93 0.00 0.00 4.79
751 767 4.443621 GTGGGAAGTCAAATAGCTCCTAC 58.556 47.826 0.00 0.00 0.00 3.18
752 768 3.454812 GGTGGGAAGTCAAATAGCTCCTA 59.545 47.826 0.00 0.00 0.00 2.94
793 809 1.774254 AGTGGACATGTTGTGGAAGGA 59.226 47.619 0.00 0.00 0.00 3.36
802 818 2.727123 TGGTCAACAGTGGACATGTT 57.273 45.000 10.43 0.00 41.47 2.71
810 826 2.998670 CAGCTCAGTATGGTCAACAGTG 59.001 50.000 0.00 0.00 36.16 3.66
850 875 4.320275 GCCACTACTTTTAACAAGGCAGAC 60.320 45.833 0.00 0.00 40.50 3.51
888 913 6.880484 TGGTGTACACTATATACCAAAGGTG 58.120 40.000 24.55 0.00 38.39 4.00
923 948 3.869832 GGTTGGGTATAAGAAGAGAACGC 59.130 47.826 0.00 0.00 0.00 4.84
941 966 0.468029 AGTGCAAGTGAAGGGGGTTG 60.468 55.000 0.00 0.00 0.00 3.77
943 968 1.073923 CTAAGTGCAAGTGAAGGGGGT 59.926 52.381 0.00 0.00 0.00 4.95
944 969 1.826385 CTAAGTGCAAGTGAAGGGGG 58.174 55.000 0.00 0.00 0.00 5.40
1026 1051 2.669240 GGGTCACTGTAGGTGGGC 59.331 66.667 0.00 0.00 45.38 5.36
1181 1206 0.719015 TGGAGGAAGGGGAGAGATGT 59.281 55.000 0.00 0.00 0.00 3.06
1200 1225 4.765273 TGGTGCTCGTGTTGATATTGTAT 58.235 39.130 0.00 0.00 0.00 2.29
1293 1318 2.941064 CAACTGCCATGTCGAATGAGAT 59.059 45.455 8.56 0.00 0.00 2.75
1480 1505 1.693062 TGCCCTGTTTTGCATCAACAT 59.307 42.857 11.35 0.00 33.67 2.71
1504 1529 0.039256 CGGCAATGGTGGTGAAACAG 60.039 55.000 0.00 0.00 39.98 3.16
1544 1569 1.282875 GCAGTTGTCGCCTGGAAAC 59.717 57.895 0.00 0.00 0.00 2.78
1731 1756 8.217111 TGGACAAGATATATGTTAGAATTGGCA 58.783 33.333 0.00 0.00 0.00 4.92
1741 1766 7.512058 AGAGAGATGGTGGACAAGATATATGTT 59.488 37.037 0.00 0.00 0.00 2.71
1745 1770 5.777223 CCAGAGAGATGGTGGACAAGATATA 59.223 44.000 0.00 0.00 35.47 0.86
1748 1773 2.770802 CCAGAGAGATGGTGGACAAGAT 59.229 50.000 0.00 0.00 35.47 2.40
1866 1891 1.893062 CTGATGTCAGACGCCTCCA 59.107 57.895 3.96 0.00 46.59 3.86
1888 1913 3.558321 GGTTGTTGTATGGGCAGTACTCA 60.558 47.826 0.00 0.00 0.00 3.41
1943 1968 2.359478 ACCGACGGTTTCCATGCC 60.359 61.111 15.37 0.00 27.29 4.40
2012 2037 2.596631 CTGCTGCTGCCTGTTGGT 60.597 61.111 13.47 0.00 38.71 3.67
2106 2134 2.815503 CAGACAGCACCAATCACAATCA 59.184 45.455 0.00 0.00 0.00 2.57
2107 2135 2.163010 CCAGACAGCACCAATCACAATC 59.837 50.000 0.00 0.00 0.00 2.67
2108 2136 2.165167 CCAGACAGCACCAATCACAAT 58.835 47.619 0.00 0.00 0.00 2.71
2109 2137 1.133823 ACCAGACAGCACCAATCACAA 60.134 47.619 0.00 0.00 0.00 3.33
2110 2138 0.473755 ACCAGACAGCACCAATCACA 59.526 50.000 0.00 0.00 0.00 3.58
2111 2139 1.160137 GACCAGACAGCACCAATCAC 58.840 55.000 0.00 0.00 0.00 3.06
2234 2271 7.373493 AGGATAAATAATTAAGCTGCATGCAC 58.627 34.615 18.46 13.93 45.94 4.57
2235 2272 7.528996 AGGATAAATAATTAAGCTGCATGCA 57.471 32.000 21.29 21.29 45.94 3.96
2236 2273 8.822652 AAAGGATAAATAATTAAGCTGCATGC 57.177 30.769 11.82 11.82 43.29 4.06
2347 2388 9.857957 GAAACTATAGAAAGTAGTGCTAACTGT 57.142 33.333 6.78 0.00 37.19 3.55
2364 2409 9.837525 ACTGTAAAACACGAGTAGAAACTATAG 57.162 33.333 0.00 0.00 35.56 1.31
2365 2410 9.831737 GACTGTAAAACACGAGTAGAAACTATA 57.168 33.333 0.00 0.00 35.56 1.31
2366 2411 8.574737 AGACTGTAAAACACGAGTAGAAACTAT 58.425 33.333 0.00 0.00 35.56 2.12
2367 2412 7.934457 AGACTGTAAAACACGAGTAGAAACTA 58.066 34.615 0.00 0.00 35.56 2.24
2368 2413 6.803642 AGACTGTAAAACACGAGTAGAAACT 58.196 36.000 0.00 0.00 39.21 2.66
2369 2414 7.009907 ACAAGACTGTAAAACACGAGTAGAAAC 59.990 37.037 0.00 0.00 32.54 2.78
2438 2483 1.323791 GTTTCGATTTTTCGGGTGCG 58.676 50.000 0.00 0.00 0.00 5.34
2556 2601 1.675310 CCCCGATCAGCAACAGCAA 60.675 57.895 0.00 0.00 0.00 3.91
2676 2729 3.184986 GTGATCAGCACCAATTTGTTTGC 59.815 43.478 0.00 10.72 41.78 3.68
2692 2749 2.768253 AGCGATGGTGAAAGTGATCA 57.232 45.000 0.00 0.00 0.00 2.92
2704 2761 1.384222 GCAAAAGGGGGTAGCGATGG 61.384 60.000 0.00 0.00 0.00 3.51
2705 2762 1.384222 GGCAAAAGGGGGTAGCGATG 61.384 60.000 0.00 0.00 0.00 3.84
2706 2763 1.076995 GGCAAAAGGGGGTAGCGAT 60.077 57.895 0.00 0.00 0.00 4.58
2707 2764 1.858739 ATGGCAAAAGGGGGTAGCGA 61.859 55.000 0.00 0.00 0.00 4.93
2708 2765 1.379843 ATGGCAAAAGGGGGTAGCG 60.380 57.895 0.00 0.00 0.00 4.26
2709 2766 1.960040 GCATGGCAAAAGGGGGTAGC 61.960 60.000 0.00 0.00 0.00 3.58
2710 2767 0.614415 TGCATGGCAAAAGGGGGTAG 60.614 55.000 0.00 0.00 34.76 3.18
2711 2768 0.178921 TTGCATGGCAAAAGGGGGTA 60.179 50.000 0.41 0.00 45.96 3.69
2712 2769 1.461075 TTGCATGGCAAAAGGGGGT 60.461 52.632 0.41 0.00 45.96 4.95
2713 2770 3.481180 TTGCATGGCAAAAGGGGG 58.519 55.556 0.41 0.00 45.96 5.40
2721 2778 0.032403 GCACAGAGTTTTGCATGGCA 59.968 50.000 0.00 0.00 38.68 4.92
2722 2779 0.032403 TGCACAGAGTTTTGCATGGC 59.968 50.000 0.00 0.00 43.79 4.40
2726 2783 1.105457 AAGCTGCACAGAGTTTTGCA 58.895 45.000 1.02 0.00 46.43 4.08
2727 2784 1.066002 TCAAGCTGCACAGAGTTTTGC 59.934 47.619 1.02 0.00 39.33 3.68
2728 2785 2.542411 GGTCAAGCTGCACAGAGTTTTG 60.542 50.000 1.02 0.00 0.00 2.44
2729 2786 1.678101 GGTCAAGCTGCACAGAGTTTT 59.322 47.619 1.02 0.00 0.00 2.43
2734 2791 2.031012 CCGGTCAAGCTGCACAGA 59.969 61.111 1.02 0.00 0.00 3.41
2740 2797 3.716006 CGCACACCGGTCAAGCTG 61.716 66.667 2.59 0.00 0.00 4.24
2775 2834 3.071892 TGTGGTATCTTTTATAGCGGGGG 59.928 47.826 0.00 0.00 0.00 5.40
2786 2845 4.532521 AGGAACTGCTAGTGTGGTATCTTT 59.467 41.667 0.00 0.00 37.18 2.52
2830 2889 8.244113 GGAAATGACCAATAAAAGGACAGTTAG 58.756 37.037 0.00 0.00 38.71 2.34
2839 2898 4.864247 CCAAGCGGAAATGACCAATAAAAG 59.136 41.667 0.00 0.00 0.00 2.27
2928 2987 0.726827 CGACACCCATGACCGAAATG 59.273 55.000 0.00 0.00 0.00 2.32
2947 3007 3.420893 TCCACCAACATTCTGATTCCAC 58.579 45.455 0.00 0.00 0.00 4.02
2977 3037 3.053619 ACCTAAATAGTTCCCAAGGCAGG 60.054 47.826 0.00 0.00 0.00 4.85
2986 3049 4.743644 CGATTCCGTGACCTAAATAGTTCC 59.256 45.833 0.00 0.00 0.00 3.62
3009 3078 5.294552 GTGATGTTGGAGAAAGCAGTATACC 59.705 44.000 0.00 0.00 0.00 2.73


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.